|
| Status |
Public on Jun 12, 2016 |
| Title |
DMSO_Pol2_ChIP2 |
| Sample type |
SRA |
| |
|
| Source name |
MV4;11_DMSO_ChIP
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: peripheral blood
cell line: MV4;11
cell type: Mixed lineage leukemia (MLL) fusion protein (FP) leukemia cell line
treatment: 0.1% DMSO
chip antibody: anti-RNA Pol II (CTD4H8, Millipore, lot 2491218)
|
| Treatment protocol |
Cell lines were grown in 0.1% DMSO, 500nM of I-BET151 and/or 5uM of SGC0946
|
| Growth protocol |
Cell lines were grown in RPMI-1640 supplemented with 20% fetal calf serum, penicillin (100 units/mL) and streptomycin (100 ug/mL)
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Lysate were isolated from formaldehybe cross-linked cells and sonicated to release the chromatin, then immunoprecipitated with antibody
ThruPLEXTM-FD Prep Kit protocol (Rubicon Genomics)
|
| |
|
| Library strategy |
ChIP-Seq |
| Library source |
genomic |
| Library selection |
ChIP |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Illumina Casava1.8.2 software was used for basecalling.
Reads were aligned to the human genome (G1k V37) using bwa 0.6.2-r126
Peak-calling was performed using MACS2
Genome_build: hg19
Supplementary_files_format_and_content: bed files from MACS2 for each sample
|
| |
|
| Submission date |
Aug 06, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Mark Dawson |
| E-mail(s) |
mark.dawson@petermac.org
|
| Organization name |
Peter MacCallum Cancer Centre
|
| Street address |
305 Grattan Street
|
| City |
Melbourne |
| State/province |
VIC |
| ZIP/Postal code |
3000 |
| Country |
Australia |
| |
|
| Platform ID |
GPL11154 |
| Series (2) |
| GSE71779 |
ChIPSeq of MV4;11 cell treated with SGC0946 for 8 hours and washout |
| GSE71780 |
Functional interdependency of BRD4 and DOT1L in MLL leukaemia |
|
| Relations |
| SRA |
SRX1134765 |
| BioSample |
SAMN03979602 |
